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ID 61557
Author
Inoue, Hirofumi Clinical Genomic Medicine, Okayama University Graduate School of Medicine, Dentistry, and Pharmaceutical Science
Tomida, Shuta Center for Comprehensive Genomic Medicine, Okayama University Hospital Kaken ID researchmap
Horiguchi, Shigeru Department of Gastroenterology and Hepatology, Okayama University Graduate School of Medicine, Dentistry, and Pharmaceutical Science
Kato, Hironari Department of Gastroenterology and Hepatology, Okayama University Graduate School of Medicine, Dentistry, and Pharmaceutical Science ORCID Kaken ID researchmap
Matsuoka, Hiromi Department of Pathology, Okayama University Hospital
Sanehira, Etsuko Department of Pathology, Okayama University Hospital
Matsuoka, Masashi Department of Pathology, Okayama University Hospital
Yanai, Hiroyuki Department of Pathology, Okayama University Hospital ORCID publons researchmap
Hirasawa, Akira Clinical Genomic Medicine, Okayama University Graduate School of Medicine, Dentistry, and Pharmaceutical Science Kaken ID researchmap
Toyooka, Shinichi Department of General Thoracic Surgery and Breast and Endocrinological Surgery, Okayama University Graduate School of Medicine, Dentistry, and Pharmaceutical Science ORCID Kaken ID publons researchmap
Abstract
Recently, two cancer genomic profiling tests have been approved in Japan and implemented in routine clinical practice: the FDA‐approved FoundationOne CDx test, and the OncoGuide NCC Oncopanel test. The quality and quantity of DNA significantly affects the sequencing results; therefore, preparing a sufficient amount of high‐quality DNA for clinical cancer genomic profiling tests is important. We examined the best practices for the extraction of cancer genomic DNA from formalin‐fixed paraffin‐embedded (FFPE) tumor tissues of pancreatic, lung and colon cancer specimens. We found that the quality of cancer genomic DNA extracted from 10‐μm‐thick FFPE samples improved significantly, compared with that from 4‐μm‐thick FFPE samples, suggesting that 10‐μm‐thick FFPE samples are preferable for clinical cancer genomic profiling tests. For convenience, we created a quick reference table for calculating the required number of FFPE slides.
Keywords
cancer genomic profiling tests
formalin‐fixed paraffin‐embedded (FFPE) tumor tissue
genomic DNA extraction
Note
This is the peer reviewed version of the following article: Hirofumi Inoue et. al. Best practices for the extraction of genomic DNA from formalin‐fixed paraffin‐embedded tumor tissue for cancer genomic profiling tests. Pathology International (2021), which has been published in final form at https://doi.org/10.1111/pin.13086. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Use of Self-Archived Versions.
This fulltext is available in March 2022.
Published Date
2021-03-03
Publication Title
Pathology International
Publisher
Wiley
ISSN
1320-5463
NCID
AA10984364
Content Type
Journal Article
language
英語
OAI-PMH Set
岡山大学
File Version
author
PubMed ID
DOI
Web of Science KeyUT
Related Url
isVersionOf https://doi.org/10.1111/pin.13086
Funder Name
Japan Society for the Promotion of Science
助成番号
JP20H03771